PXD004980

PXD004980 is an original dataset announced via ProteomeXchange.

Title	eIF1 modulates the recognition of sub-optimal translation start sites and steers gene expression control mediated by uORFs.
Description	Alternative translation initiation mechanisms such as leaky scanning and re-initiation potentiate the polycistronic nature of transcripts. By allowing for reprogrammed translation, these mechanisms can mediate biological responses to stress stimuli. We combined proteomics with ribosome profiling and mRNA sequencing to identify the biological targets of translation control triggered by the eukaryotic translation initiation factor 1 (eIF1), a protein implicated in the stringency of start codon selection. We quantified expression changes of over 4,000 proteins and 10,000 actively translated transcripts, leading to the identification of 245 transcripts undergoing translational control mediated by upstream open reading frames (uORFs) upon eIF1 deprivation. The stringency of start codon selection and preference for an optimal nucleotide context were largely diminished leading to translational upregulation of uORFs with sub-optimal start sites. Affected genes were implicated in energy production and sensing of metabolic stress. Interestingly, knockdown of eIF1 elicited a synergic response from eIF5 and eIF1B.
HostingRepository	PRIDE
AnnounceDate	2017-09-13
AnnouncementXML	Submission_2017-09-13_06:54:37.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daria Gawron
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-09-15 08:00:34	ID requested
⏵ 1	2017-09-13 06:54:38	announced

Fijalkowska D, Verbruggen S, Ndah E, Jonckheere V, Menschaert G, Van Damme P, eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs. Nucleic Acids Res, 45(13):7997-8013(2017) [pubmed]

submitter keyword: label-free shotgun proteomics, Q-Exactive HF, human, alternative translation initiation, eIF1, eIF1B

Kris Gevaert
contact affiliation	VIB Medical Biotechnology Center Department of Biochemistry, Ghent University A. Baertsoenkaai 3 B9000 Ghent Belgium
contact email	kris.gevaert@vib-ugent.be
lab head
Daria Gawron
contact affiliation	VIB Department of Medical Protein Research, University of Ghent
contact email	daria.gawron@ugent.be
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/09/PXD004980

PRIDE project URI

• PRIDE
  1. PXD004980
     1. Label: PRIDE project
     2. Name: eIF1 modulates the recognition of sub-optimal translation start sites and steers gene expression control mediated by uORFs.